A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2024-02-26, 17:38 +03
based on data in:
/data/coursework2024/week1/jcpaper/results
General Statistics
| Sample Name | % Expression Efficiency | # Genes | % rRNA Alignment | % Aligned | M Aligned |
|---|---|---|---|---|---|
| SRR18280823 | 54.4% | 15158 | 1.8% | 90.1% | 8.7 M |
| SRR18280824 | 58.0% | 15543 | 1.9% | 89.9% | 10.2 M |
| SRR18280825 | 38.8% | 17231 | 2.2% | 91.9% | 19.0 M |
| SRR18280826 | 48.7% | 18453 | 1.4% | 92.2% | 24.2 M |
| SRR18280827 | 42.8% | 18019 | 1.3% | 92.3% | 19.8 M |
| SRR18280828 | 44.0% | 17285 | 0.8% | 92.3% | 14.4 M |
| SRR18280829 | 55.2% | 15901 | 2.0% | 91.6% | 11.7 M |
| SRR18280830 | 53.0% | 17893 | 1.3% | 91.6% | 24.6 M |
| SRR18280831 | 60.2% | 16203 | 2.4% | 90.0% | 11.2 M |
| SRR18280832 | 42.1% | 17475 | 0.9% | 92.2% | 13.2 M |
| SRR18280833 | 41.9% | 17647 | 0.9% | 93.1% | 18.1 M |
| SRR18280834 | 36.3% | 11185 | 0.6% | 91.7% | 21.3 M |
| SRR18280835 | 41.9% | 10767 | 1.1% | 89.2% | 27.5 M |
| SRR18280836 | 43.2% | 8376 | 1.0% | 89.1% | 12.4 M |
| SRR18280837 | 34.9% | 12801 | 1.1% | 66.1% | 15.2 M |
| SRR18280838 | 37.8% | 12730 | 0.8% | 91.3% | 18.4 M |
| SRR18280839 | 58.9% | 17943 | 1.9% | 90.2% | 25.9 M |
| SRR18280840 | 58.3% | 17546 | 1.7% | 91.2% | 23.3 M |
| SRR18280841 | 58.2% | 17635 | 1.7% | 90.6% | 22.1 M |
| SRR18280842 | 59.1% | 17791 | 1.9% | 90.6% | 20.6 M |
| SRR18280843 | 60.3% | 17006 | 1.2% | 90.9% | 14.4 M |
| SRR18280844 | 47.9% | 18531 | 1.2% | 91.3% | 22.5 M |
| SRR18280845 | 50.8% | 17503 | 1.4% | 91.7% | 18.2 M |
| SRR18280846 | 35.8% | 11834 | 0.6% | 90.4% | 16.4 M |
| SRR18280847 | 46.9% | 11177 | 1.7% | 86.4% | 8.3 M |
| SRR18280848 | 52.7% | 16043 | 1.4% | 92.0% | 11.7 M |
| SRR18280849 | 59.6% | 16339 | 1.9% | 91.3% | 17.4 M |
| SRR18280850 | 60.5% | 15827 | 1.9% | 91.1% | 11.4 M |
| SRR18280851 | 42.3% | 18146 | 1.2% | 93.0% | 20.8 M |
| SRR18280852 | 37.6% | 12943 | 0.8% | 89.6% | 22.4 M |
| SRR18280853 | 47.8% | 13578 | 1.2% | 90.0% | 41.0 M |
| SRR18280854 | 45.0% | 12202 | 1.0% | 89.9% | 22.7 M |
| SRR18280855 | 35.0% | 12267 | 0.7% | 91.0% | 22.3 M |
| SRR18280856 | 48.0% | 9026 | 1.3% | 89.0% | 15.7 M |
RNA-SeQC
RNA-SeQC Fast, efficient RNA-Seq metrics for quality control and process optimization.DOI: 10.1093/bioinformatics/btab135; 10.1093/bioinformatics/bts196.
Transcript-associated reads
All of the rates given are per mapped read.
- Exonic Rate is the fraction mapping within exons.
- Intronic Rate is the fraction mapping within introns.
- Intergenic Rate is the fraction mapping in the genomic space between genes.
Strand Specificity
End 1/2 Sense are the number of End 1 or 2 reads that were sequenced in the sense direction.
End 1/2 Antisense are the number of End 1 or 2 reads that were sequenced in the antisense direction
Read Counts
Number of reads (millions) falling into different categories.
Note that many of these statistics are only available from RNA-SeQC v2.x
STAR
STAR is an ultrafast universal RNA-seq aligner.DOI: 10.1093/bioinformatics/bts635.
Alignment Scores
Gene Counts
Statistics from results generated using --quantMode GeneCounts. The three tabs show counts for unstranded RNA-seq, counts for the 1st read strand aligned with RNA and counts for the 2nd read strand aligned with RNA.
